Locus 9040

Sequence ID 3R_DroMel_CAF1
Location 24,188,571 – 24,188,683
Length 112
Max. P 0.559273
window14478

overview

Window 8

Location 24,188,571 – 24,188,683
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.29
Mean single sequence MFE -30.46
Consensus MFE -16.39
Energy contribution -17.23
Covariance contribution 0.84
Combinations/Pair 1.21
Mean z-score -1.98
Structure conservation index 0.54
SVM decision value 0.05
SVM RNA-class probability 0.559273
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24188571 112 - 27905053
UGGCUGCGAAAUAUGCAGCC---AGCAGACUGACAAAUCGCU--UACCUUUAAAUCCGGUAGC-CUGCAAACUGCUUUAA-GGGCUCC-AGAGCCGUGAAGCUGCACAACAUUCAUAUUU
((((((((.....)))))))---)((((...((....))(((--.(((.........))))))-)))).....((((((.-.((((..-..)))).)))))).................. ( -34.50)
>DroSec_CAF1 11478 112 - 1
UGGCUGCGAAAUAUGCAGCC---AGCGGACUGACAAAUCGCU--CACCUUUAAAUCCAGUAGC-CUGCAAGCUGCUUUAA-GGGCUCU-ACAGCCAUGAAGCUGCACAACAUUCAUAUUU
((((((((.....)))))))---)((((((((..........--............))))...-))))..((.((((((.-.((((..-..)))).)))))).))............... ( -32.45)
>DroSim_CAF1 15108 112 - 1
UGGCUGCGAAAUAUGCAGCC---AGCGGACUGACAAAUCGCU--CACCUUUAAAUCCAGCAGC-CUGCAAACUGCUUUAA-GGGCUCC-AGAGCCAUGAAGCUGCACAACAUUCAUAUUU
((((((((.....)))))))---)((((.((.....((.(((--(.(((((((....(((((.-.......)))))))))-)))....-.)))).))..))))))............... ( -33.50)
>DroEre_CAF1 14428 114 - 1
UGGCUGCGAAAUAUGCAGCC---AGCGGACUGACAAAUCGCUCUCACCUUUAAAUCCGGUAGC-CAAAAGACAGCUUUAA-GGGCUCC-AGUGCCUGGAAGCUGCACAACAUUCAUAUUU
((((((((.....)))))))---)...((.((.......(((...(((.........))))))-.....(.(((((((..-((((...-...)))).))))))))....)).))...... ( -32.30)
>DroYak_CAF1 12288 114 - 1
UUGCUGCGAAAUAUGCAGCC---AGCGGACUGACAAAUCGCU--CACCAUUAAAUCCAGUAGCCCAAAAAACGGCUUUAACUGGCUCG-AGUGCCUGGAAGCUGCACAACAUUCAUAUUU
..((((((.....)))))).---.((((.((..((...((((--(..........(((((((((........))))...)))))...)-))))..))..))))))............... ( -30.12)
>DroAna_CAF1 9964 104 - 1
UGCCUGUGAAAUAUUCAGGCAACAGCAAACUGACAAAUAACU--CACCUUUAAGCCCAU------------GUUCUUUAA-AGGGACUAAGUAACAGGACGGUGAA-AUCAUAAAUACUU
((((((.........)))))).(((....))).........(--((((....(((((..------------.........-.))).))..((......))))))).-............. ( -19.90)
>consensus
UGGCUGCGAAAUAUGCAGCC___AGCGGACUGACAAAUCGCU__CACCUUUAAAUCCAGUAGC_CUGCAAACUGCUUUAA_GGGCUCC_AGAGCCAGGAAGCUGCACAACAUUCAUAUUU
.(((((((.....)))))))....(((.((((........................)))).............(((((....(((((...)))))..))))))))............... (-16.39 = -17.23 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:19 2006